GalaxyTrakr

GalaxyTrakr provides a Galaxy platform instance for processing and analysis of whole genome sequencing (WGS) data to support public health genomics and food-safety investigations.

Key Features:

• Galaxy platform instance: Operates as a customized instance of the Galaxy bioinformatics platform tailored for WGS analysis.
• Cloud-based infrastructure: Leverages cloud computing to provide scalable computational power and storage for large WGS datasets.
• Quality assessment tools: Includes tools for sequence quality assessment to ensure analyses use reliable input data.
• Linkage analysis: Performs linkage analyses to identify connections between clinical isolates and food or environmental samples, including sequences from the National Center for Biotechnology Information sequence read archive (SRA).
• Metagenomics support: Supports exploration and analysis of metagenomics methodologies.
• Customizable tools: Enables creation and sharing of custom analysis tools tailored to specific research needs.
• Data integration: Integrates sequence data generated locally with external data sources for comprehensive analyses.
• Coordinated analytic methods: Provides coordinated analytic methods and consistent interpretation frameworks to support reproducible results across laboratories.

Scientific Applications:

• Outbreak investigation and source attribution: Identifies links between pathogens in clinical, food, and environmental samples to support outbreak investigations and regulatory response.
• Public health surveillance: Enables harmonized WGS analyses by public health laboratories for surveillance and regulatory research.
• Large-scale genomic analyses: Supports processing and analysis of high volumes of WGS data for surveillance, research, and food-safety monitoring.

Methodology:

Operates as a cloud-based Galaxy platform instance providing a suite of tools for WGS analysis, including sequence quality assessment, linkage analysis (including use of NCBI SRA), and metagenomics exploration.